diff --git a/codeHF/config_input.sh b/codeHF/config_input.sh
index 1ee0ffb4..af4539e4 100644
--- a/codeHF/config_input.sh
+++ b/codeHF/config_input.sh
@@ -57,6 +57,7 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_HF"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
   8)
     INPUT_LABEL="Run 5, p-p MC 14 TeV Inel, Scenario 3, onia analysis"
@@ -64,6 +65,7 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_ONIAX"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
   9)
     INPUT_LABEL="Run 5, p-p MC 14 TeV OniaX-enriched, Scenario 3, oniaX analysis"
@@ -71,6 +73,7 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_ONIAX"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
   10)
     INPUT_LABEL="Run 5, p-p MC 14 TeV LctopKpi-enriched, Scenario 3, HF analysis"
@@ -78,6 +81,7 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_HF"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
   11)
     INPUT_LABEL="Run 5, Kr-Kr MC 6.460 TeV Inel, Scenario 3, HF analysis"
@@ -85,6 +89,7 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_HF"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
   12)
     INPUT_LABEL="Run 5, p-p MC 14 TeV OniaX-enriched, Scenario 3, oniaX analysis MUON ID"
@@ -92,5 +97,6 @@ case $INPUT_CASE in
     INPUT_FILES="AODRun5.*.root"
     JSON="$JSONRUN5_ONIAX"
     ISINPUTO2=1
+    ISALICE3=1
     ISMC=1;;
 esac
diff --git a/codeHF/config_tasks.sh b/codeHF/config_tasks.sh
index 1fc131bd..f0a4dc8a 100644
--- a/codeHF/config_tasks.sh
+++ b/codeHF/config_tasks.sh
@@ -157,6 +157,8 @@ function MakeScriptO2 {
   [ $DOO2_CASC -eq 1 ] && SUFFIX_CASC="-v0" || SUFFIX_CASC=""
   # Event selection
   [ $DOO2_EVSEL -eq 1 ] && SUFFIX_EVSEL="-evsel" || SUFFIX_EVSEL=""
+  # ALICE 3 input
+  [ "$ISALICE3" -eq 1 ] && SUFFIX_ALICE3="-alice3" || SUFFIX_ALICE3=""
 
   WORKFLOWS=""
   # QA
@@ -169,15 +171,16 @@ function MakeScriptO2 {
   [ $DOO2_PID_TOF -eq 1 ] && WORKFLOWS+=" o2-analysis-pid-tof-full"
   [ $DOO2_PID_TOF_QA -eq 1 ] && WORKFLOWS+=" o2-analysis-pid-tof-qa-mc"
   # Vertexing
-  WF_SKIM="o2-analysis-hf-track-index-skims-creator${SUFFIX_EVSEL}${SUFFIX_CASC}"
-  [ $DOO2_SKIM -eq 1 ] && WORKFLOWS+=" $WF_SKIM"
+  WF_SKIM="o2-analysis-hf-track-index-skims-creator"
+  [ $DOO2_SKIM -eq 1 ] && WORKFLOWS+=" ${WF_SKIM}${SUFFIX_EVSEL}${SUFFIX_CASC}"
   [ $DOO2_CAND_2PRONG -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-candidate-creator-2prong"
   [ $DOO2_CAND_3PRONG -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-candidate-creator-3prong"
   [ $DOO2_CAND_X -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-candidate-creator-x"
   [ $DOO2_CAND_CASC -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-candidate-creator-cascade"
   # Selectors
   [ $DOO2_SEL_D0 -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-d0-candidate-selector"
-  [ $DOO2_SEL_JPSI -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-jpsi-candidate-selector"
+  WF_SEL_JPSI="o2-analysis-hf-jpsi-candidate-selector"
+  [ $DOO2_SEL_JPSI -eq 1 ] && WORKFLOWS+=" ${WF_SEL_JPSI}${SUFFIX_ALICE3}"
   [ $DOO2_SEL_DPLUS -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-dplus-topikpi-candidate-selector"
   [ $DOO2_SEL_LC -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-lc-candidate-selector"
   [ $DOO2_SEL_XIC -eq 1 ] && WORKFLOWS+=" o2-analysis-hf-xic-topkpi-candidate-selector"
@@ -205,13 +208,20 @@ function MakeScriptO2 {
 
   # Make a copy of the default workflow database file before modifying it.
   DATABASE_O2_EDIT=""
-  if [[ $DOO2_EVSEL -eq 1 || $DOO2_CASC -eq 1 ]]; then
+  if [[ $DOO2_EVSEL -eq 1 || $DOO2_CASC -eq 1 || "$ISALICE3" -eq 1 ]]; then
     DATABASE_O2_EDIT="${DATABASE_O2/.yml/_edit.yml}"
     cp "$DATABASE_O2" "$DATABASE_O2_EDIT" || ErrExit "Failed to cp $DATABASE_O2 $DATABASE_O2_EDIT."
     DATABASE_O2="$DATABASE_O2_EDIT"
 
+    # Adjust workflow database in case of ALICE 3 input.
+    [ "$ISALICE3" -eq 1 ] && {
+      ReplaceString "- $WF_SEL_JPSI" "- ${WF_SEL_JPSI}${SUFFIX_ALICE3}" "$DATABASE_O2" || ErrExit "Failed to edit $DATABASE_O2."
+    }
+
     # Adjust workflow database in case of event selection or cascades enabled.
-    ReplaceString "- o2-analysis-hf-track-index-skims-creator" "- $WF_SKIM" "$DATABASE_O2" || ErrExit "Failed to edit $DATABASE_O2."
+    [[ $DOO2_EVSEL -eq 1 || $DOO2_CASC -eq 1 ]] && {
+      ReplaceString "- $WF_SKIM" "- ${WF_SKIM}${SUFFIX_EVSEL}${SUFFIX_CASC}" "$DATABASE_O2" || ErrExit "Failed to edit $DATABASE_O2."
+    }
   fi
 
   # Generate the O2 command.
diff --git a/codeHF/workflows.yml b/codeHF/workflows.yml
index 245ff11a..2d92d0bf 100644
--- a/codeHF/workflows.yml
+++ b/codeHF/workflows.yml
@@ -69,7 +69,8 @@ workflows:
 
   o2-analysis-hf-candidate-creator-x:
     <<: *cand_creator
-    dependencies: o2-analysis-hf-jpsi-candidate-selector
+    dependencies:
+      - o2-analysis-hf-jpsi-candidate-selector
     tables:
       default: [HFCANDXBASE, HFCANDXEXT]
       mc: [HFCANDXMCREC, HFCANDXMCGEN]
@@ -80,10 +81,15 @@ workflows:
     dependencies: [o2-analysis-hf-candidate-creator-2prong, o2-analysis-pid-tpc-full, o2-analysis-pid-tof-full]
     tables: HFSELD0CAND
 
-  o2-analysis-hf-jpsi-candidate-selector:
+  o2-analysis-hf-jpsi-candidate-selector: &selector_jpsi
     <<: *selector_2prong
+    executable: o2-analysis-hf-jpsi-candidate-selector
     tables: HFSELJPSICAND
 
+  o2-analysis-hf-jpsi-candidate-selector-alice3:
+    <<: *selector_jpsi
+    options: --isAlice3
+
   o2-analysis-hf-dplus-topikpi-candidate-selector: &selector_3prong
     dependencies: [o2-analysis-hf-candidate-creator-3prong, o2-analysis-pid-tpc-full, o2-analysis-pid-tof-full]
     tables: HFSELDPLUSCAND
@@ -112,7 +118,8 @@ workflows:
 
   o2-analysis-hf-task-jpsi:
     <<: *task
-    dependencies: o2-analysis-hf-jpsi-candidate-selector
+    dependencies:
+      - o2-analysis-hf-jpsi-candidate-selector
 
   o2-analysis-hf-task-dplus:
     <<: *task
diff --git a/exec/runtest.sh b/exec/runtest.sh
index c73f223f..465fb9d3 100644
--- a/exec/runtest.sh
+++ b/exec/runtest.sh
@@ -25,6 +25,7 @@ INPUT_FILES="AliESDs.root"      # Input file pattern
 JSON="dpl-config.json"          # Tasks parameters
 ISINPUTO2=0                     # Input files are in O2 format.
 ISMC=0                          # Input files are MC data.
+ISALICE3=0                      # Input data from the ALICE 3 detectors.
 TRIGGERSTRINGRUN2=""            # Run 2 trigger (not used)
 TRIGGERBITRUN3=-1               # Run 3 trigger (not used)
 NFILESMAX=1                     # Maximum number of processed input files. (Set to -0 to process all; to -N to process all but the last N files.)